Gene Page:PIP4K2A

Summary?
GeneID 5305
Symbol PIP4K2A
Synonyms PI5P4KA|PIP5K2A|PIP5KII-alpha|PIP5KIIA|PIPK
Description phosphatidylinositol-5-phosphate 4-kinase, type II, alpha
Reference MIM:603140|HGNC:HGNC:8997|Ensembl:ENSG00000150867|HPRD:11931|Vega:OTTHUMG00000017810
Gene type protein-coding
Map location 10p12.2
Pascal p-value 0.689
Sherlock p-value 0.07
DEG p-value DEG:Zhao_2015:p=4.17e-04:q=0.0926
Fetal beta -1.386
DMG 1 (# studies)
eGene Myers' cis & trans
Support G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS
G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL
G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS
G2Cdb.humanPSD
G2Cdb.humanPSP
CompositeSet

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DEG:Zhao_2015 核糖核酸测序分析 Transcriptome sequencing and genome-wide association analyses reveal lysosomal function and actin cytoskeleton remodeling in schizophrenia and bipolar disorder.
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 2
PMID:cooccur High-throughput literature-search Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Association A combined odds ratio method (Sun et al. 2008), association studies 3 Link to SZGene
Literature High-throughput literature-search 与精神分裂症Co-occurance关键词:schizophrenia,schizophrenic,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg14215711 10 22894054 PIP4K2A 2.432E-4 -0.452 0.037 DMG:Wockner_2014
cg03100686 10 22992381 PIP4K2A 4.86E-4 -0.674 0.047 DMG:Wockner_2014

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs2627230 chr6 134379868 PIP4K2A 5305 0.2 trans
rs7930609 chr11 24504207 PIP4K2A 5305 0.14 trans
rs11656351 chr17 9489574 PIP4K2A 5305 0.07 trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
ABCA8 0.97 0.86
UGT8 0.96 0.80
SLC12A2 0.95 0.82
ANLN 0.95 0.82
ERMN 0.95 0.76
GLDN 0.94 0.79
CDH19 0.93 0.77
MYO1D 0.93 0.77
PIP5K2A 0.93 0.77
LAMP2 0.93 0.84
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
TBC1D10A -0.50 -0.47
AC009133.1 -0.47 -0.51
AC006276.2 -0.47 -0.55
NR2C2AP -0.46 -0.54
NOL12 -0.46 -0.52
SCNM1 -0.45 -0.56
BCL7C -0.45 -0.59
C1orf86 -0.45 -0.57
DALRD3 -0.45 -0.50
RPL12 -0.44 -0.60

Section III. Gene Ontology annotation

Molecular function GO term Evidence Neuro keywords PubMed ID
GO:0000166 nucleotide binding IEA -
GO:0005524 ATP binding IEA -
GO:0016740 transferase activity IEA -
GO:0016309 1-phosphatidylinositol-5-phosphate 4-kinase activity IEA -
GO:0016308 1-phosphatidylinositol-4-phosphate 5-kinase activity NAS 7639683
GO:0016301 kinase activity IEA -
Biological process GO term Evidence Neuro keywords PubMed ID
GO:0016310 phosphorylation NAS -
GO:0046488 phosphatidylinositol metabolic process IEA -
Cellular component GO term Evidence Neuro keywords PubMed ID
GO:0005575 cellular_component ND -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG INOSITOL PHOSPHATE METABOLISM 54 42 All SZGR 2.0 genes in this pathway
KEGG PHOSPHATIDYLINOSITOL SIGNALING SYSTEM 76 56 All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON 216 144 All SZGR 2.0 genes in this pathway
REACTOME PHOSPHOLIPID METABOLISM 198 112 All SZGR 2.0 genes in this pathway
REACTOME SYNTHESIS OF PIPS AT THE PLASMA MEMBRANE 31 23 All SZGR 2.0 genes in this pathway
REACTOME PI METABOLISM 48 34 All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS 478 302 All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS UP 457 269 All SZGR 2.0 genes in this pathway
SENESE HDAC1 AND HDAC2 TARGETS UP 238 144 All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED UP 633 376 All SZGR 2.0 genes in this pathway
RASHI RESPONSE TO IONIZING RADIATION 6 84 54 All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN 855 609 All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 COMMON DN 483 336 All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS UP 414 287 All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037 673 All SZGR 2.0 genes in this pathway
MORI LARGE PRE BII LYMPHOCYTE DN 58 39 All SZGR 2.0 genes in this pathway
MORI SMALL PRE BII LYMPHOCYTE DN 76 52 All SZGR 2.0 genes in this pathway
MORI IMMATURE B LYMPHOCYTE UP 53 35 All SZGR 2.0 genes in this pathway
MORI MATURE B LYMPHOCYTE UP 90 62 All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 UP 256 159 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 1691 1088 All SZGR 2.0 genes in this pathway
LU AGING BRAIN UP 262 186 All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1 528 324 All SZGR 2.0 genes in this pathway
ZHENG BOUND BY FOXP3 491 310 All SZGR 2.0 genes in this pathway
ZHENG FOXP3 TARGETS IN THYMUS UP 196 137 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS DN 543 317 All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS UP 602 364 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP 601 369 All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 3D UP 210 124 All SZGR 2.0 genes in this pathway
BERNARD PPAPDC1B TARGETS UP 40 20 All SZGR 2.0 genes in this pathway
WANG TUMOR INVASIVENESS UP 374 247 All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210 725 All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS UP 518 299 All SZGR 2.0 genes in this pathway
RAGHAVACHARI PLATELET SPECIFIC GENES 70 46 All SZGR 2.0 genes in this pathway
NOUSHMEHR GBM GERMLINE MUTATED 8 5 All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN 1972 1213 All SZGR 2.0 genes in this pathway
BHAT ESR1 TARGETS NOT VIA AKT1 UP 211 131 All SZGR 2.0 genes in this pathway
BHAT ESR1 TARGETS VIA AKT1 UP 281 183 All SZGR 2.0 genes in this pathway
LINSLEY MIR16 TARGETS 206 127 All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS UP 116 87 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position microrna的ID miRNA seq
UTR start UTR end Match method
miR-30-5p 116 123 1A,m8 hsa-miR-30a-5p UGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrain UGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZ UGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZ UGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5p UGUAAACAUCCUUGACUGGA